There is an app you can get for your phone called 3D Brain that is rather good. I understand freesurfer and other open source software from McGill have this capability.
Brain Explorer 2, from the Allen Institute. Allows you to navigate a 3D mouse brain, as well as apply cutting planes in three orthogonal axes. Individual brain regions can be turned on/off, colored, made transparent. Different additional atlas types can be displayed as well. I don't know whether they have other species available besides mouse?
https://mouse.brain-map.org/static/brainexplorer
Unfortunately, as far as I know it still does not let you identify stereotaxic coordinates.
EDIT: There is also an online (browser-based) version of the Brain Explorer software. It operates similarly to the Brain Explorer 2 software that I mentioned above, but might be useful to people who can't install the full program. However, loading brain shapes takes some time. Interestingly, it seems to allowed "point picking", meaning that the cursor position is shown in xyz coordinates - these coordinates don't directly correspond to typical stereotaxic coordinates. At first glance, the coordinates are in micrometers, so may allow for relative measurements. http://connectivity.brain-map.org/3d-viewer